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com.stevesoft.pat.patInf
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com.stevesoft.pat.OrMark
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com.stevesoft.pat.Rthings
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mc_view.Residue
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jalview.json.binding.biojs.BioJSRepositoryPojo
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com.stevesoft.pat.oneChar
com.stevesoft.pat.oneChar
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jalview.ws.SequenceFetcher
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jalview.xml.binding.jalview.JalviewModel.JSeq
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com.stevesoft.pat.Range
com.stevesoft.pat.Range
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com.stevesoft.pat.wrap.StringWrap
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com.stevesoft.pat.StrPos
com.stevesoft.pat.StrPos
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jalview.datamodel.Profile
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mc_view.PDBChain
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com.stevesoft.pat.Boundary
com.stevesoft.pat.Boundary
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com.stevesoft.pat.Pattern
com.stevesoft.pat.Pattern
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0.550%
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com.stevesoft.pat.FastMulti
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jalview.viewmodel.ViewportProperties
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jalview.xml.binding.jalview.AnnotationElement
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jalview.xml.binding.jalview.SequenceType
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0.550%
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jalview.xml.binding.jalview.Annotation
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0.550%
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0.550%
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mc_view.Bond
mc_view.Bond
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0.550%
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0.550%
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jalview.schemes.PurinePyrimidineColourScheme
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jalview.schemes.NucleotideColourScheme
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0.550%
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0.550%
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0.550%
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0.550%
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jalview.analysis.SequenceIdMatcher
jalview.analysis.SequenceIdMatcher
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jalview.xml.binding.jalview.JalviewModel.JGroup
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jalview.datamodel.PDBEntry
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jalview.gui.SequenceRenderer
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jalview.gui.SplashScreen
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jalview.gui.ColourMenuHelper
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jalview.xml.binding.jalview.JalviewModel.JSeq.Pdbids.StructureState
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jalview.io.BioJsHTMLOutput
jalview.io.BioJsHTMLOutput
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jalview.renderer.ResidueColourFinder
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0.4523809645.2%
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jalview.datamodel.ResidueCount
jalview.datamodel.ResidueCount
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com.stevesoft.pat.parsePerl
com.stevesoft.pat.parsePerl
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jalview.gui.SeqCanvas
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jalview.gui.AlignViewport
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jalview.analysis.AlignSeq
jalview.analysis.AlignSeq
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jalview.ws.utils.UrlDownloadClient
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jalview.xml.binding.jalview.Sequence
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jalview.io.StructureFile
jalview.io.StructureFile
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jalview.util.ShortcutKeyMaskExWrapper11
jalview.util.ShortcutKeyMaskExWrapper11
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com.stevesoft.pat.Or
com.stevesoft.pat.Or
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0.4102564241%
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jalview.util.Comparison
jalview.util.Comparison
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jalview.viewmodel.ViewportRanges
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jalview.ws.jws2.JabaPreset
jalview.ws.jws2.JabaPreset
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jalview.ws.dbsources.EmblSource
jalview.ws.dbsources.EmblSource
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0.440%
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jalview.schemes.HydrophobicColourScheme
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0.440%
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jalview.schemes.HelixColourScheme
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0.440%
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jalview.schemes.TurnColourScheme
jalview.schemes.TurnColourScheme
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0.440%
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0.440%
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jalview.schemes.BuriedColourScheme
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0.440%
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jalview.viewmodel.AlignmentViewport
jalview.viewmodel.AlignmentViewport
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0.3968133639.7%
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jalview.log.JalviewAppender
jalview.log.JalviewAppender
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0.388888938.9%
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jalview.datamodel.Range
jalview.datamodel.Range
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0.388888938.9%
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org.json.simple.parser.Yylex
org.json.simple.parser.Yylex
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jalview.datamodel.features.FeatureAttributes.AttributeData
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jalview.datamodel.SequenceFeature
jalview.datamodel.SequenceFeature
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jalview.renderer.ResidueShader
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jalview.gui.AlignmentPanel
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jalview.util.Format
jalview.util.Format
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0.3685300436.9%
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jalview.io.NewickFile
jalview.io.NewickFile
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jalview.datamodel.features.FeatureStore
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jalview.ws.jws2.MsaWSClient
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jalview.ext.jmol.JalviewJmolBinding
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jalview.datamodel.AlignmentAnnotation
jalview.datamodel.AlignmentAnnotation
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0.3412534.1%
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jalview.xml.binding.jalview.VAMSAS
jalview.xml.binding.jalview.VAMSAS
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0.3333333433.3%
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jalview.datamodel.Sequence
jalview.datamodel.Sequence
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0.3295847833%
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com.stevesoft.pat.Regex
com.stevesoft.pat.Regex
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jalview.io.FileLoader
jalview.io.FileLoader
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0.3143812731.4%
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jalview.renderer.seqfeatures.FeatureRenderer
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0.3132075431.3%
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jalview.datamodel.PDBEntry.Type
jalview.datamodel.PDBEntry.Type
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jalview.gui.IdwidthAdjuster
jalview.gui.IdwidthAdjuster
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0.302631630.3%
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org.json.simple.parser.JSONParser
org.json.simple.parser.JSONParser
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0.2945544429.5%
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jalview.datamodel.HiddenSequences
jalview.datamodel.HiddenSequences
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0.2876712428.8%
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jalview.ws.dbsources.EmblCdsSource
jalview.ws.dbsources.EmblCdsSource
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jalview.datamodel.Annotation
jalview.datamodel.Annotation
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jalview.schemes.JalviewColourScheme
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jalview.structure.StructureImportSettings
jalview.structure.StructureImportSettings
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mc_view.Atom
mc_view.Atom
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jalview.viewmodel.seqfeatures.FeaturesDisplayed
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jalview.datamodel.features.FeatureAttributes
jalview.datamodel.features.FeatureAttributes
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jalview.gui.ScalePanel
jalview.gui.ScalePanel
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0.2695312527%
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jalview.util.QuickSort
jalview.util.QuickSort
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0.2653721626.5%
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jalview.structure.StructureSelectionManager
jalview.structure.StructureSelectionManager
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0.2626666726.3%
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jalview.schemes.IdColourScheme
jalview.schemes.IdColourScheme
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0.2608695626.1%
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jalview.viewmodel.seqfeatures.FeatureRendererModel
jalview.viewmodel.seqfeatures.FeatureRendererModel
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0.25665125.7%
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jalview.project.Jalview2XML
jalview.project.Jalview2XML
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com.stevesoft.pat.NullPattern
com.stevesoft.pat.NullPattern
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0.2525%
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com.stevesoft.pat.StringRule
com.stevesoft.pat.StringRule
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0.2525%
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jalview.renderer.AnnotationRendererFactory
jalview.renderer.AnnotationRendererFactory
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0.2525%
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0.2525%
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jalview.schemes.ColourSchemes
jalview.schemes.ColourSchemes
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0.2456140424.6%
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jalview.ws.rest.params.Alignment
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jalview.io.FileFormats
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jalview.datamodel.DBRefEntry
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com.stevesoft.pat.RegRes
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jalview.gui.TreePanel
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ext.vamsas.ServiceHandle
ext.vamsas.ServiceHandle
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jalview.datamodel.SequenceCursor
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jalview.gui.JvSwingUtils
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jalview.io.FileParse
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jalview.datamodel.SequenceNode
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jalview.gui.StructureViewerBase
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jalview.io.JalviewFileFilter
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jalview.ws.jws1.Discoverer
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jalview.datamodel.Alignment
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com.stevesoft.pat.patInt
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jalview.ws.jws2.Jws2Discoverer
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jalview.analysis.AnnotationSorter
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jalview.gui.AppJmolBinding
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jalview.gui.BlogReader
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jalview.io.AlignFile
jalview.io.AlignFile
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jalview.schemes.Blosum62ColourScheme
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jalview.util.StringUtils
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jalview.io.IdentifyFile
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jalview.gui.AnnotationPanel
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0.1628151216.3%
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jalview.ws.jws1.WS1Client
jalview.ws.jws1.WS1Client
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0.1616%
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jalview.gui.Desktop.MyDesktopManager
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0.1555555615.6%
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jalview.viewmodel.seqfeatures.FeatureRendererSettings
jalview.viewmodel.seqfeatures.FeatureRendererSettings
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jalview.ws.jws2.JabaParamStore
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jalview.gui.AlignFrame
jalview.gui.AlignFrame
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jalview.workers.AlignCalcWorker
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jalview.log.JLogger
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jalview.gui.Desktop.MyDesktopPane
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0.1428571514.3%
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com.stevesoft.pat.Branch
com.stevesoft.pat.Branch
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0.140939614.1%
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jalview.datamodel.HiddenColumns
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jalview.schemes.PIDColourScheme
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jalview.bin.Console
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jalview.gui.Desktop
jalview.gui.Desktop
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0.1292710812.9%
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jalview.ws.rest.params.SeqGroupIndexVector
jalview.ws.rest.params.SeqGroupIndexVector
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0.12408759412.4%
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jalview.analysis.CrossRef
jalview.analysis.CrossRef
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0.1229508212.3%
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jalview.structure.StructureCommand
jalview.structure.StructureCommand
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0.1212%
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jalview.ws.rest.RestClient
jalview.ws.rest.RestClient
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0.11538461611.5%
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jalview.util.MapList
jalview.util.MapList
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jalview.util.ShortcutKeyMaskExWrapper
jalview.util.ShortcutKeyMaskExWrapper
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0.1111111111.1%
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jalview.ws.sifts.SiftsSettings
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jalview.schemes.RNAHelicesColour
jalview.schemes.RNAHelicesColour
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0.1095890411%
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jalview.schemes.FeatureColour
jalview.schemes.FeatureColour
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0.10736842510.7%
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jalview.log.JLoggerLog4j
jalview.log.JLoggerLog4j
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0.10679611610.7%
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jalview.util.DBRefUtils
jalview.util.DBRefUtils
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0.1057401810.6%
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jalview.datamodel.Mapping
jalview.datamodel.Mapping
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0.10389610410.4%
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jalview.analysis.scoremodels.ScoreMatrix
jalview.analysis.scoremodels.ScoreMatrix
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0.1028806610.3%
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jalview.ws.rest.params.AnnotationFile
jalview.ws.rest.params.AnnotationFile
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0.10256410410.3%
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org.json.simple.parser.Yytoken
org.json.simple.parser.Yytoken
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0.096774199.7%
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jalview.util.ColorUtils
jalview.util.ColorUtils
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0.096774199.7%
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jalview.util.JSONUtils
jalview.util.JSONUtils
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0.090909099.1%
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com.stevesoft.pat.ReplaceRule
com.stevesoft.pat.ReplaceRule
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0.08771938.8%
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jalview.ws.dbsources.Xfam
jalview.ws.dbsources.Xfam
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0.086956528.7%
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jalview.ws.dbsources.Pdb
jalview.ws.dbsources.Pdb
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0.085106388.5%
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jalview.util.Platform
jalview.util.Platform
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0.084905668.5%
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jalview.ws.jws2.Jws2Client
jalview.ws.jws2.Jws2Client
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0.0843373468.4%
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jalview.ext.ensembl.EnsemblSequenceFetcher
jalview.ext.ensembl.EnsemblSequenceFetcher
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0.0833333368.3%
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jalview.gui.Console
jalview.gui.Console
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0.082568818.3%
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jalview.util.HttpUtils
jalview.util.HttpUtils
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0.0818713468.2%
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jalview.gui.ProgressBar
jalview.gui.ProgressBar
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0.081300818.1%
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jalview.ws.seqfetcher.DbSourceProxyImpl
jalview.ws.seqfetcher.DbSourceProxyImpl
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0.081081088.1%
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jalview.gui.TreeCanvas
jalview.gui.TreeCanvas
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0.078518527.9%
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jalview.datamodel.ColumnSelection.IntList
jalview.datamodel.ColumnSelection.IntList
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0.074766357.5%
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jalview.gui.IdPanel
jalview.gui.IdPanel
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0.067264576.7%
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jalview.io.JalviewFileChooser.RecentlyOpened
jalview.io.JalviewFileChooser.RecentlyOpened
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0.066666676.7%
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com.stevesoft.pat.RegOpt
com.stevesoft.pat.RegOpt
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0.06474826.5%
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jalview.io.FileFormat
jalview.io.FileFormat
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0.0620155046.2%
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jalview.gui.ViewSelectionMenu
jalview.gui.ViewSelectionMenu
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0.059405945.9%
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jalview.ws.seqfetcher.ASequenceFetcher
jalview.ws.seqfetcher.ASequenceFetcher
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0.0577777775.8%
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jalview.datamodel.ContactMapHolder
jalview.datamodel.ContactMapHolder
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0.0576923085.8%
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jalview.bin.Cache
jalview.bin.Cache
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0.0509641885.1%
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jalview.analysis.GeneticCodes
jalview.analysis.GeneticCodes
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0.0496894425%
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jalview.datamodel.SecondaryStructureCount
jalview.datamodel.SecondaryStructureCount
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0.0468754.7%
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jalview.io.AppletFormatAdapter
jalview.io.AppletFormatAdapter
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0.043478264.3%
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jalview.gui.WsParamSetManager
jalview.gui.WsParamSetManager
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0.0429447854.3%
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org.json.simple.JSONObject
org.json.simple.JSONObject
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0.037735853.8%
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jalview.gui.StructureViewer
jalview.gui.StructureViewer
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0.0346534663.5%
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jalview.gui.SliderPanel
jalview.gui.SliderPanel
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0.031253.1%
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jalview.ws.jws1.JPredClient
jalview.ws.jws1.JPredClient
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0.0310559013.1%
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jalview.schemes.ClustalxColourScheme
jalview.schemes.ClustalxColourScheme
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0.0254237282.5%
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jalview.controller.AlignViewController
jalview.controller.AlignViewController
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0.0238907862.4%
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jalview.datamodel.ColumnSelection
jalview.datamodel.ColumnSelection
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0.017182131.7%
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jalview.ws.dbsources.Uniprot
jalview.ws.dbsources.Uniprot
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0.0155642021.6%
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mc_view.PDBfile
mc_view.PDBfile
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0.0150375941.5%
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jalview.datamodel.SearchResults
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0.0128205131.3%
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jalview.gui.SeqPanel
jalview.gui.SeqPanel
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jalview.io.SequenceAnnotationReport
jalview.io.SequenceAnnotationReport
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0.0122699381.2%
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jalview.bin.Jalview
jalview.bin.Jalview
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0.0117328521.2%
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jalview.gui.SequenceFetcher
jalview.gui.SequenceFetcher
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0.0089285720.9%
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jalview.bin.argparser.BootstrapArgs
jalview.bin.argparser.BootstrapArgs
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0.0082644620.8%
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jalview.ext.ensembl.EnsemblGene
jalview.ext.ensembl.EnsemblGene
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0.0081632650.8%
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org.json.simple.JSONArray
org.json.simple.JSONArray
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0.0080645160.8%
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jalview.gui.QuitHandler
jalview.gui.QuitHandler
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0.00722021660.7%
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jalview.analysis.AlignmentUtils
jalview.analysis.AlignmentUtils
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com.stevesoft.pat.CaseMgr
com.stevesoft.pat.CaseMgr
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0.00278551530.3%
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jalview.schemes.ResidueProperties
jalview.schemes.ResidueProperties
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0.00105042020.1%
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